A genome-wide comprehensively analyses of long noncoding RNA profiling and metastasis associated lncRNAs in renal cell carcinoma

Abstract

Recently, a growing number of studies have indicated that long noncoding RNAs (lncRNAs) are emerging as new critical regulators of tumorigenesis and prognostic markers in multiple cancers. However, the expression pattern of lncRNAs and their contributions in renal cell carcinoma (RCC) remains poorly understood. In this study, we performed a genome-wide comprehensively analysis of lncRNAs profiling and clinical relevance to provide valuable lncRNA candidates for the further study in RCC. RCC and non-tumor tissues RNA sequencing data, and microarray data were obtained from The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO), then, these data were annotated and analyzed to find dysregulated lncRNAs in RCC. We identified that hundreds of lncRNAs were differentially expressed in RCC tissues compared with normal tissues, and genomic variation analyses revealed that copy number amplification or deletion happened in some of these lncRNAs genome loci. Moreover, lots of lncRNAs expression levels are significantly associated RCC patients overall survival time, such as PVT1 and DUXAP8. Finally, we identified some novel metastasis associated lncRNAs in RCC (such as DUXAP8) by analyzing lncRNAs profiling in the RCC tissues from patients with metastasis compared with the primary RCC tissues without metastasis; knockdown of DUXAP8 could impair RCC cells invasive ability in vitro. Overall, our findings illuminate a lot of lncRNAs are aberrantly expressed in RCC that may offer useful resource for identification novel prognostic markers in this disease.

A genome‐wide analysis of long noncoding RNA profile identifies differentially expressed lncRNAs associated with Esophageal cancer

“…Among these increased lncRNAs, we found that DUXAP8 and LINC00460 are consistently upregulated in TCGA data and three GEO datasets (Figure 4A,B). Interestingly, DUXAP8 has also been reported to be overexpressed in human non small cell lung cancer,24 gastric cancer25 and renal cell carcinoma,26 while LINC00460 expression is upregulated in nasopharyngeal carcinoma27 and promotes carcinogenesis in ESCC 28. Therefore, we chose these two lncRNAs for further analyses and validation.…”

Knockdown of pseudogene�DUXAP8 expression in glioma suppresses tumor cell proliferation

“…For instance, the pseudogene DUXAP8 promotes non-small-cell lung cancer cell proliferation, and invasion by epigenetically silencing early growth response 1 and Ras homolog family member B (11). Pseudogene DUXAP8 was significantly associated with overall survival time of patients with renal cell carcinoma (RCC), and the knockdown of DUXAP8 may impair RCC cells invasive ability in vitro (17). Increased DUXAP8 promoted cell proliferation and invasion through epigenetically silencing pleckstrin homology domain contain O1 expression by binding with enhancer of zeste 2 polycomb repressive complex 2 subunit and SUZ12, polycomb repressive complex 2 subunit in gastric cancer cells (12).…”

The prognostic value of long non-coding RNA PlncRNA-1 in patients with cancers: a systematic review and meta-analysis

“…Accumulating evidence has demonstrated that abnormal expression of lncRNAs plays an important role in the development and progression of tumours [30,31]. LncRNAs have become a hot topic as diagnostic markers of diseases.…”